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…ness domains ## MRI/fMRI Neuroimaging Value Sets ### New Schema: medical/neuroimaging.yaml - **MRIModalityEnum**: 13 imaging modalities including structural (T1, T2, FLAIR), functional (BOLD, task-based, resting-state), and advanced techniques (DTI, ASL, SWI, perfusion) - **MRISequenceTypeEnum**: 6 pulse sequence types (GRADIENT_ECHO, SPIN_ECHO, EPI, MPRAGE, SPACE, TRUFI) - **MRIContrastTypeEnum**: 6 contrast mechanisms (T1_WEIGHTED, T2_WEIGHTED, T2_STAR, etc.) - **FMRIParadigmTypeEnum**: 5 experimental paradigms (BLOCK_DESIGN, EVENT_RELATED, MIXED_DESIGN, etc.) ### Comprehensive Ontology Mappings - NCIT mappings for medical imaging terms - EDAM mappings for experimental design concepts - CHMO mappings for NMR/chemical concepts - STATO mappings for statistical design terms - mesh mappings for biomedical concepts - Rich metadata with technical parameters and clinical applications ## Nuclear Energy Domain Expansion ### New Nuclear Schema Files - **reactor_types.yaml**: 6 comprehensive enums for reactor classifications - ReactorTypeEnum: 15 reactor types (PWR, BWR, PHWR, etc.) - ReactorGenerationEnum: 5 generational classifications - ReactorCoolantEnum: 8 primary coolant types - ReactorModeratorEnum: 5 neutron moderator types - ReactorNeutronSpectrumEnum: 3 neutron energy classifications - ReactorSizeCategoryEnum: 5 size categories - **nuclear_fuels.yaml**: 4 fuel-related enums - NuclearFuelTypeEnum: 14 fuel types with enrichment levels - UraniumEnrichmentLevelEnum: 6 enrichment classifications - FuelFormEnum: 4 physical fuel forms - FuelCycleStageEnum: 8 fuel cycle stages - **nuclear_waste.yaml**: 4 waste management enums - RadioactiveWasteClassEnum: 5 waste classifications - WasteStorageMethodEnum: 8 storage approaches - WasteDisposalMethodEnum: 6 disposal strategies - WasteProcessingMethodEnum: 8 processing techniques - **nuclear_safety.yaml**: 4 safety-focused enums - NuclearSafetySystemEnum: 12 safety systems - ReactorProtectionSystemEnum: 8 protection systems - EmergencyResponseLevelEnum: 7 emergency classifications - RadiationProtectionLevelEnum: 5 protection categories - **nuclear_facilities.yaml**: 6 facility type enums - NuclearFacilityTypeEnum: 12 facility categories - PowerPlantStatusEnum: 8 operational states - NuclearLicenseTypeEnum: 6 licensing categories - ReactorVesselTypeEnum: 4 vessel designs - ContainmentTypeEnum: 5 containment structures - CoolingSystemTypeEnum: 6 cooling approaches - **nuclear_operations.yaml**: 6 operational enums - ReactorOperationalStateEnum: 9 operational states - MaintenanceTypeEnum: 8 maintenance categories - FuelHandlingOperationEnum: 8 fuel operations - PlantLifecyclePhaseEnum: 7 lifecycle phases - OperationalModeEnum: 6 operating modes - EmergencyProcedureTypeEnum: 9 emergency procedures ## Business Domain Addition ### New Business Schema Files - **organizational_structures.yaml**: 7 organizational enums - **industry_classifications.yaml**: 4 industry classification systems - **management_operations.yaml**: 6 management-focused enums - **quality_management.yaml**: 5 quality system enums - **supply_chain.yaml**: 6 supply chain enums - **human_resources.yaml**: 8 HR-related enums ## Biology Domain Updates ### Enhanced UniProt Species Support - **uniprot_species.yaml**: Enhanced with proteome mappings - **scripts/sync_uniprot_species.py**: New sync script for UniProt data - **go_aspect.yaml**: New Gene Ontology aspect classifications ## Technical Improvements ### Schema Integration - Updated main valuesets.yaml with all new imports - Added new ontology prefixes (CHMO, STATO) for enhanced mappings - Maintained consistent naming conventions and structure ### Generated Artifacts - Updated Python datamodel classes (valuesets.py, valuesets_pydantic.py) - Regenerated rich enum classes with metadata access - Updated enum exports in __init__.py (426 total enums) - Refreshed documentation schema ### Quality Assurance - All schemas validated successfully - Comprehensive ontology term verification via OLS - Rich metadata annotations for domain expertise - Consistent CURIE-based ontology mappings 🤖 Generated with [Claude Code](https://claude.ai/code) Co-Authored-By: Claude <noreply@anthropic.com>
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Superseded by #14 |
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Summary
This PR adds comprehensive value sets for MRI/fMRI neuroimaging and significantly expands the nuclear energy and business domains. The neuroimaging value sets provide standardized terminology for research data management, BIDS compliance, and clinical applications.
MRI/fMRI Neuroimaging Value Sets (New)
New Schema:
medical/neuroimaging.yamlComprehensive Ontology Integration
Nuclear Energy Domain Expansion
6 New Nuclear Schema Files with 33 Enums Total
Business Domain Addition
6 New Business Schema Files
Biology Domain Updates
scripts/sync_uniprot_species.pygo_aspect.yaml)Technical Improvements
Use Cases
These value sets support:
Test Plan
just validate)just site)🤖 Generated with Claude Code